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In the paper and implementation you add noise to the genetic component of the phenotype to reach a desired heritability using:
> g' = h * g + sqrt(1-h^2) N(0, 1), where h = heritability
There ma…
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Take it from matteo's work. You need to fit a model between a trait from the parent(s) and a trait from the offspring. The number of parents and the trait should be a param.
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Hi dougspeed,
Recently, I was trying to estimate the heritability of reproductive traits using LDAK, but the error showed multiple individual numbers, wondering whether LDAK can not directly estimate…
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Dear curators,
I was wondering if you could add an option to estimate and statistically test the heritability, more or less like GEMMA does with "PVE" in Linear Mixed Models with the kinship matrix o…
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Hi,
Thank you for developing such an useful tool!
I am wondering how to obtain the estimated heritability of a disease from the return of the function ```glmmkin```. I tried the command as follows…
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Dear LCV users,
when using LCV as shown in the tutorial:
LCV = RunLCV(data[,"L2"],data[,"Z.x"],data[,"Z.y"] )
I would often get the error "NaNs produced, probably due to negative heritability est…
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I have recently been running a MegaPRS on some meta-analysis summary statistics and using 1000G as a reference panel. This is something I have run earlier this year (prior to version 6) and it worked …
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Hello - would anyone please suggest an ANGSD way to estimate SNP-based heritability of a trait?
cheers
Misha
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Dear all,
I installed everything. I run the test files. Everything is working.
I created the summary stats based on my summary statistics.
python munge_sumstats.py --sumstats AD_META_GENOTYP…
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Hi ,
I was trying to perform the partitioned heritability calculations. So I took one of your examples, based on the BMI GIANT meta-analysis. (https://github.com/bulik/ldsc/wiki/Partitioned-Herita…